Exploring a Drosophila Transcription Factor Interaction Network to Identify Cis-Regulatory Modules. - A. K. M. Firoj Mahmud; Doo Yang; Per Stenberg; Ilya Ioshikhes; Soumyadeep Nandi (J. Comput. Biol., 2020)

ProkSeq for complete analysis of RNA-Seq data from prokaryotes. - A. K. M. Firoj Mahmud; Nicolas Delhomme; Soumyadeep Nandi; Maria Fällman (Bioinform., 2021)